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Series GSE23943 Query DataSets for GSE23943
Status Public on Apr 27, 2012
Title Epigenome and transcriptome of naive pluripotent mouse embryonic stem (ES) cells cultured in 2i serum-free medium
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Summary This study describes the epigenetic and transcriptome profiling of mouse ES cells cultures in 2i serum-free medium. The proteins for which ChIP-Seq profiles were generated in these cells, as well as for cells grown in serum conditions, include H3K4me3, H3K36me3, H3K27me3, H3K9me3, Suz12 and Ezh2. A sequence profile of genomic DNA is also included. Furthermore, we included RNA-Seq of ds_cDNA synthesized from double poly(A) selected mRNA and from rRNA depleted (strand specific) total RNA.
Overall design ChIP-Seq profiling and RNA-Seq profiling on mouse naive ES cells
Contributor(s) Marks H, Menafra R, Kalkan T, Denissov S, Jones K, Hofemeister H, Nichols J, Kranz A, Stewart AF, Smith A, Stunnenberg HG
Citation(s) 22541430
Submission date Sep 02, 2010
Last update date May 15, 2019
Contact name Hendrik Marks
Organization name Radboud University Nijmegen, RIMLS
Department Molecular Biology
Street address Geert Grooteplein 26/28
City Nijmegen
ZIP/Postal code 6525GA
Country Netherlands
Platforms (1)
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
Samples (41)
GSM590109 TNGA-2i_H3K4me3
GSM590110 TNGA-serum_H3K4me3
GSM590111 E14-serum_H3K4me3
SRA SRP003412
BioProject PRJNA130405

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE23943_RAW.tar 4.1 Gb (http)(custom) TAR (of BED, WIG)
SRA Run SelectorHelp
Processed data provided as supplementary file
Raw data are available in SRA
Processed data included within Sample table

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